diff rgFastQC.xml @ 16:ff9530579d1f draft

planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/fastqc commit 9a987a679243f52297c465180da0bb557a3d0fa7

--- a/rgFastQC.xml	Fri Nov 24 08:18:41 2017 -0500
+++ b/rgFastQC.xml	Sun Jan 14 09:31:51 2018 -0500
@@ -1,7 +1,7 @@
-<tool id="fastqc" name="FastQC" version="0.70">
+<tool id="fastqc" name="FastQC" version="0.71">
     <description>Read Quality reports</description>
     <requirements>
-        <requirement type="package" version="0.11.5">fastqc</requirement>
+        <requirement type="package" version="0.11.6">fastqc</requirement>
     </requirements>
     <command detect_errors="exit_code"><![CDATA[
         #import re
@@ -23,7 +23,6 @@
             #set format = 'fastq'
         #end if
 
-
         ln -s '${input_file}' '${input_file_sl}' &&
         mkdir -p '${html_file.files_path}' &&
         fastqc
@@ -63,30 +62,30 @@
             <param name="input_file" value="1000gsample.fastq" />
             <param name="contaminants" value="fastqc_contaminants.txt" ftype="tabular" />
             <output name="html_file" file="fastqc_report.html" ftype="html" lines_diff="100"/>
-            <output name="text_file" file="fastqc_data.txt" ftype="txt" lines_diff="2"/>
+            <output name="text_file" file="fastqc_data.txt" ftype="txt" lines_diff="4"/>
         </test>
         <test>
             <param name="input_file" value="1000gsample.fastq" />
             <param name="limits" value="fastqc_customlimits.txt" ftype="txt" />
             <output name="html_file" file="fastqc_report2.html" ftype="html" compare="sim_size" delta="4096"/>
-            <output name="text_file" file="fastqc_data2.txt" ftype="txt" lines_diff="2"/>
+            <output name="text_file" file="fastqc_data2.txt" ftype="txt" lines_diff="4"/>
         </test>
         <test>
             <param name="input_file" value="1000gsample.fastq.gz" ftype="fastq.gz" />
             <param name="contaminants" value="fastqc_contaminants.txt" ftype="tabular" />
             <output name="html_file" file="fastqc_report.html" ftype="html" lines_diff="100"/>
-            <output name="text_file" file="fastqc_data.txt" ftype="txt" lines_diff="2"/>
+            <output name="text_file" file="fastqc_data.txt" ftype="txt" lines_diff="4"/>
         </test>
         <test>
             <param name="input_file" value="1000gsample.fastq.bz2" ftype="fastq.bz2" />
             <param name="contaminants" value="fastqc_contaminants.txt" ftype="tabular" />
             <output name="html_file" file="fastqc_report.html" ftype="html" lines_diff="100"/>
-            <output name="text_file" file="fastqc_data.txt" ftype="txt" lines_diff="2"/>
+            <output name="text_file" file="fastqc_data.txt" ftype="txt" lines_diff="4"/>
         </test>
         <test>
             <param name="input_file" value="hisat_output_1.bam" ftype="bam" />
             <output name="html_file" file="fastqc_report_hisat.html" ftype="html" lines_diff="100"/>
-            <output name="text_file" file="fastqc_data_hisat.txt" ftype="txt" lines_diff="2"/>
+            <output name="text_file" file="fastqc_data_hisat.txt" ftype="txt" lines_diff="4"/>
         </test>
     </tests>
     <help>